Hi,
I've got an error in a DESeq2 analysis. So I've 30 samples, with a 3 factor design. So I put a Replicate column in my design . it's for technical replicate. I don't know if it's a good idea...
So when I use DESeq2 :
and I have an error :
invalid class “DESeqDataSet” object: the model matrix is not full rank, i.e. one or more variables in the design formula are linear combinations of the others
Anyone has an idea to solve this ?
Thanks,
N.
I've got an error in a DESeq2 analysis. So I've 30 samples, with a 3 factor design. So I put a Replicate column in my design . it's for technical replicate. I don't know if it's a good idea...
So when I use DESeq2 :
Code:
dds <- DESeqDataSetFromMatrix(countData=OAR.readCount,colData=design,design= ~ Stranded + Replicate + condition )
invalid class “DESeqDataSet” object: the model matrix is not full rank, i.e. one or more variables in the design formula are linear combinations of the others
Anyone has an idea to solve this ?
Thanks,
N.
Code:
Sample condition Stranded Replicate A.1 Ctrl No A B.1 Ctrl No B C.1 Ctrl No C D.1 Tum No D E.1 Tum No E F.1 Tum No F G.1 Tum No G H.1 Tum No H I.1 Tum No I J.1 Tum No J K.1 Tum No K L.1 Tum No L M.1 Ctrl Yes M N.1 Tum Yes N O.1 Tum Yes O P.1 Tum Yes P E.2 Tum Yes E F.2 Tum Yes F I.2 Tum Yes I Q.1 Tum Yes Q K.2 Tum Yes K R.1 Tum Yes R S.1 Tum Yes S T.1 Tum Yes T L.2 Tum Yes L O.2 Tum Yes O T.2 Tum Yes T I.3 Tum Yes I L.3 Tum Yes L
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